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- PDB-8pjw: Crystal structure of the computationally designed SAKe6FE protein -
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Open data
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Basic information
Entry | Database: PDB / ID: 8pjw | ||||||||||||
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Title | Crystal structure of the computationally designed SAKe6FE protein | ||||||||||||
![]() | SAKe6FE | ||||||||||||
![]() | UNKNOWN FUNCTION / computational / design / scaffold / propeller / Kelch | ||||||||||||
Biological species | synthetic construct (others) | ||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||
![]() | Wouters, S.M.L. | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Computational design of the SAKe scaffold proteins Authors: Wouters, S.M.L. / Noguchi, H. / Voet, A.R.D. | ||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 233.4 KB | Display | ![]() |
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PDB format | ![]() | 179 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 429.3 KB | Display | ![]() |
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Full document | ![]() | 432.9 KB | Display | |
Data in XML | ![]() | 24 KB | Display | |
Data in CIF | ![]() | 36.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 30959.730 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) synthetic construct (others) / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.9 Å3/Da / Density % sol: 35.09 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion Details: 0.2 M AmSO4 , 0.1 M Na acetate pH 4.6, 30%(w/v) PEG 2000 MME |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Jun 2, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97857 Å / Relative weight: 1 |
Reflection | Resolution: 1.65→39.74 Å / Num. obs: 55648 / % possible obs: 99.8 % / Redundancy: 5.4 % / Biso Wilson estimate: 15.17 Å2 / CC1/2: 0.997 / Rmerge(I) obs: 0.101 / Rpim(I) all: 0.047 / Rrim(I) all: 0.112 / Net I/σ(I): 10.6 / Num. measured all: 300640 |
Reflection shell | Resolution: 1.65→1.68 Å / % possible obs: 99.8 % / Redundancy: 5.4 % / Rmerge(I) obs: 0.708 / Num. measured all: 14862 / Num. unique obs: 2764 / CC1/2: 0.798 / Rpim(I) all: 0.336 / Rrim(I) all: 0.786 / Net I/σ(I) obs: 2.8 |
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Processing
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Refinement | Method to determine structure: ![]() Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 19.45 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.65→33.65 Å
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Refine LS restraints |
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LS refinement shell |
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